RNAseq123

This is the released version of RNAseq123; for the devel version, see RNAseq123.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7

RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR

Bioconductor version: Release (3.23)

R package that supports the F1000Research workflow article on RNA-seq analysis using limma, Glimma and edgeR by Law et al. (2016).

Author: Charity Law, Monther Alhamdoosh, Shian Su, Xueyi Dong, Luyi Tian, Gordon Smyth and Matthew Ritchie

Maintainer: Matthew Ritchie <mritchie at wehi.edu.au>

Citation (from within R, enter citation("RNAseq123")):

Charity Law, Monther Alhamdoosh, Shian Su, Xueyi Dong, Luyi Tian, Gordon Smyth and Matthew Ritchie. RNAseq123: RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR. doi:10.18129/B9.bioc.RNAseq123, R package version 1.36.0, https://bioconductor.org/packages/RNAseq123.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("RNAseq123")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("RNAseq123")

A guide to creating design matrices for gene expression experiments (English version)	HTML	R Script
RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR (Chinese version)	HTML	R Script
RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR (English version)	HTML	R Script

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	GeneExpressionWorkflow, ImmunoOncologyWorkflow, Workflow
Version	1.36.0
In Bioconductor since	BioC 3.7 (R-3.5) (8.5 years)
License	Artistic-2.0
Depends	R (>= 3.3.0), Glimma (>= 1.1.9), limma, edgeR, gplots, RColorBrewer, Mus.musculus, R.utils, TeachingDemos, statmod, BiocWorkflowTools
Imports
System Requirements
URL	https://f1000research.com/articles/5-1408/v3

Suggests	knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	RNAseq123_1.36.0.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Source Repository	git clone https://git.bioconductor.org/packages/RNAseq123
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/RNAseq123
Package Short Url	https://bioconductor.org/packages/RNAseq123/
Package Downloads Report	Download Stats